YRC Public Data Repository - Protein Structure Prediction

Protein:	YDR336W
Organism:	Saccharomyces cerevisiae
Length:	314 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for YDR336W.

Description	E-value	Query Range	Subject Range
MRX8_YEAST - MIOREX complex component 8 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=MRX8 PE=1 SV=... YDR336W - Putative protein of unknown function; sumoylated under stress conditions in a genome wide study; YDR... gi\|207346439 - gi\|207346439\|gb\|EDZ72932.1\| YDR336Wp-like protein [Saccharomyces cerevisiae AWRI1631] gi\|190404723 - gi\|190404723\|gb\|EDV07990.1\| conserved hypothetical protein [Saccharomyces cerevisiae RM11-1a]	2.0E-56	[1..314]	[1..314]
gi\|149737870, gi... - gi\|153827657\|ref\|ZP_01980324.1\| thiophene and furan oxidation protein ThdF [Vibrio cholerae MZO-2], ... gi\|9654394, gi\|1... - gi\|9654394\|gb\|AAF93181.1\| thiophene and furan oxidation protein ThdF [Vibrio cholerae O1 biovar El T... gi\|227008128, gi... - gi\|227080240\|ref\|YP_002808791.1\| thiophene and furan oxidation protein ThdF [Vibrio cholerae M66-2],... gi\|254851569, gi... - gi\|254851569\|ref\|ZP_05240919.1\| thiophene and furan oxidation protein ThdF [Vibrio cholerae MO10], g... gi\|153225450, gi... - gi\|153225450\|ref\|ZP_01954755.1\| thiophene and furan oxidation protein ThdF [Vibrio cholerae MAK 757]... gi\|11279574 - pir\|\|D82375 thiophene and furan oxidation protein ThdF VC0003 [imported] - Vibrio cholerae (strain N...	3.0E-53	[1..311]	[100..387]
gi\|25319364 - gi\|25319364\|pir\|\|C86055 hypothetical protein thdF [imported] - Escherichia coli (strain O157:H7, su... gi\|12518545, gi\|... - gi\|15804300\|ref\|NP_290339.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 EDL933], gi\|125...	5.0E-53	[1..311]	[90..377]
gi\|254795709, gi... - gi\|254795709\|ref\|YP_003080546.1\| 5-methylaminomethyl-2-thiouridine-synthesizing GTPase [Escherichia ... gi\|25319352, gi\|... - pir\|\|A98209 hypothetical protein ECs4641 [imported] - Escherichia coli (strain O157:H7, substrain R... MNME_ECO57 - tRNA modification GTPase MnmE OS=Escherichia coli O157:H7 GN=mnmE PE=3 SV=1 gi\|208814185, gi... - gi\|208814185\|ref\|ZP_03255514.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC4045]... gi\|208740195, gi... - gi\|208820072\|ref\|ZP_03260392.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC4042]... MNME_ECO5E - tRNA modification GTPase MnmE OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=mnmE PE=3 SV=1 gi\|217324903, gi... - gi\|217324903\|ref\|ZP_03440987.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. TW14588... gi\|189373460, gi... - gi\|189373460\|gb\|EDU91876.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC869], gi\|... gi\|168798745, gi... - gi\|189378836\|gb\|EDU97252.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC508], gi\|... gi\|195936329 - gi\|195936329\|ref\|ZP_03081711.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC4024] gi\|208808040, gi... - gi\|208808040\|ref\|ZP_03250377.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC4206]... gi\|189369584, gi... - gi\|189369584\|gb\|EDU88000.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC4501], gi... gi\|189364418, gi... - gi\|189364418\|gb\|EDU82837.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC4486], gi... gi\|168772255, gi... - gi\|187771576\|gb\|EDU35420.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC4196], gi... gi\|168779932, gi... - gi\|189002302\|gb\|EDU71288.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC4076], gi... gi\|15833895, gi\|... - gi\|15833895\|ref\|NP_312668.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. Sakai], gi... gi\|168748574, gi... - gi\|188016998\|gb\|EDU55120.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC4113], gi... gi\|189359120, gi... - gi\|189359120\|gb\|EDU77539.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC4401], gi...	2.0E-52	[1..311]	[90..377]
MNME_SALTY - tRNA modification GTPase MnmE OS=Salmonella typhimurium GN=mnmE PE=3 SV=1 TRME_SALTY, MNME... - tRNA modification GTPase trmE - Salmonella typhimurium, tRNA modification GTPase mnmE OS=Salmonella ... MNME_SALTY - tRNA modification GTPase MnmE OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=mnm... lcl\|NC_016856.1_... - [gene=trmE] [protein=tRNA modification GTPase TrmE] [protein_id=YP_005240111.1] [location=4061906..4...	2.0E-52	[1..311]	[90..377]
gi\|15981992, gi\|... - gi\|218931079\|ref\|YP_002348954.1\| tRNA modification GTPase TrmE [Yersinia pestis CO92], gi\|16124211\|r... MNME_YERPE - tRNA modification GTPase MnmE OS=Yersinia pestis GN=mnmE PE=3 SV=1	2.0E-52	[1..311]	[90..377]
gi\|213052691 - gi\|213052691\|ref\|ZP_03345569.1\| tRNA modification GTPase TrmE [Salmonella enterica subsp. enterica s... gi\|213424947 - gi\|213424947\|ref\|ZP_03357697.1\| tRNA modification GTPase TrmE [Salmonella enterica subsp. enterica s... gi\|213580794 - gi\|213580794\|ref\|ZP_03362620.1\| tRNA modification GTPase TrmE [Salmonella enterica subsp. enterica s... TRME_SALTI, MNME... - tRNA modification GTPase trmE - Salmonella typhi, tRNA modification GTPase mnmE OS=Salmonella typhi ... MNME_SALTI - tRNA modification GTPase MnmE OS=Salmonella typhi GN=mnmE PE=3 SV=1 gi\|29139607, gi\|... - gi\|29143971\|ref\|NP_807313.1\| tRNA modification GTPase TrmE [Salmonella enterica subsp. enterica sero... gi\|16762483 - gi\|16762483\|ref\|NP_458100.1\| tRNA modification GTPase TrmE [Salmonella enterica subsp. enterica sero... gi\|213865392 - gi\|213865392\|ref\|ZP_03387511.1\| tRNA modification GTPase TrmE [Salmonella enterica subsp. enterica s...	3.0E-52	[1..311]	[90..377]
MNME_ECOLC - tRNA modification GTPase MnmE OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=mnmE PE=... MNME_ECO8A - tRNA modification GTPase MnmE OS=Escherichia coli O8 (strain IAI1) GN=mnmE PE=3 SV=1 MNME_ECODH - tRNA modification GTPase MnmE OS=Escherichia coli (strain K12 / DH10B) GN=mnmE PE=3 SV=1 MNME_ECOSE - tRNA modification GTPase MnmE OS=Escherichia coli (strain SE11) GN=mnmE PE=3 SV=1 MNME_ECOBW - tRNA modification GTPase MnmE OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=mnmE PE=3 SV=1 gi\|124530079, gi... - gi\|124530079\|ref\|ZP_01700862.1\| tRNA modification GTPase TrmE [Escherichia coli B], gi\|124499484\|gb\|... gi\|226838890, gi... - gi\|254038925\|ref\|ZP_04872977.1\| tRNA modification GTPase TrmE [Escherichia sp. 1_1_43], gi\|226838890... TRME_ECOLI - Probable tRNA modification GTPase trmE - Escherichia coli MNME_SHIBS - tRNA modification GTPase MnmE OS=Shigella boydii serotype 4 (strain Sb227) GN=mnmE PE=3 SV=1 gi\|89110306, gi\|... - gi\|89110306\|ref\|AP_004086.1\| GTPase [Escherichia coli str. K-12 substr. W3110], gi\|85676337\|dbj\|BAE7... EG10997 - tRNA U34 5-methylaminomethyl-2-thiouridine modification GTPase / GTPase required for 5-methylaminome... MNME_SHIB3 - tRNA modification GTPase MnmE OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=mnmE PE... gi\|188493740, gi... - gi\|75514232\|ref\|ZP_00736540.1\| COG0486: Predicted GTPase [Escherichia coli 53638], gi\|188493740\|ref\|... EG10997 - tRNA U34 5-methylaminomethyl-2-thiouridine modification GTPase / GTPase required for 5-methylaminome...	4.0E-52	[1..311]	[90..377]
gi\|290554 - gi\|290554\|gb\|AAA62057.1\| 50 kD protein	6.0E-52	[1..311]	[90..377]
gi\|12721514, gi\|... - gi\|15603031\|ref\|NP_246103.1\| tRNA modification GTPase TrmE [Pasteurella multocida subsp. multocida s...	1.0E-50	[1..311]	[101..388]

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Predicted Domain #1

Region A:
Residues: [1-122]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MEQLCKRYVH TPAAFIQNIV ANTKRTTLAT QLSVEKAKKK VPKTALKKKL NSRPKERLPN  60
   61 WLKLNDVFNI HYEKPSNSDI NKVNRFFNKA KVEFEWCAAS FDDIPENPFL NKKSHKDILK 120
  121 DH

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [123-314]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GECGTTLIDT LPEVIFLGGT NVGKSSILNN ITTSHVSRDL GSLARVSKTT GFTKTLNCYN  60
   61 VGNRLRMIDS PGYGFNSSKE QGKVTLQYLL ERKQLVRCFL LLAGDKEINN TDNMIIQYIH 120
  121 EHGVPFEVVF TKMDKVKDLN KFKKKVMSSG LMDLPTLPRL VLTNSLTSST SPKRFGIDLL 180
  181 RYVIFQSCGL IL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	32.221849
Match:	1egaA_
Description:	GTPase Era, N-terminal domain; GTPase Era C-terminal domain
Matching Structure (courtesy of the PDB):

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits